2J56L

X-ray reduced paraccocus denitrificans methylamine dehydrogenase n- semiquinone in complex with amicyanin.
Total Genus 31
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
31
Knots found
sequence length
125
structure length
124
Chain Sequence
TDPRAKWVPQDNDIQACDYWRHCSIDGNICDCSGGSLTNCPPGTKLATASVASCYNPTDGQSYLIAYRDCCGYNVSGRCPCLNTEGELPVYRPEFANDIIWCFGAEDDAMTYHCTISPIVGKAS
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule keywords AMICYANIN
publication title Tracking X-Ray-Derived Redox Changes in Crystals of a Methylamine Dehydrogenase/Amicyanin Complex Using Single-Crystal Uv/Vis Microspectrophotometry.
pubmed doi rcsb
molecule tags Oxidoreductase
total genus 31
structure length 124
sequence length 125
chains with identical sequence M
other databases KnotProt 2.0: K
ec nomenclature ec 1.4.9.1: Methylamine dehydrogenase (amicyanin).
pdb deposition date 2006-09-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
L PF02975 Me-amine-dh_L Methylamine dehydrogenase, L chain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.60.30.10 Mainly Beta Sandwich Electron Transport Ethylamine Dehydrogenase Methylamine/Aralkylamine dehydrogenase light chain 2j56L00
1MG3B 2IUVD 2J56L 3SXTC 4FA4C 3SJLC 2J57K 2GC7B 4L3GC 2I0SD 3SLEC 2AH0D 2HKMD 2OK4D 2HKRD 3C75L 3PXTC 3RMZC 1MAFL 3PXSC 2Q7QD 3L4MC 3ORVC 2MADL 2MTAL 2HJ4D 2IAAB 2AGLD 3PXWC 4L3HC 3RLMC 4Y5RC 3SVWC 1MDAL 4FA5C 4L1QC 4O1QC 2IURD 3RN1C 4FA1C 2IUQD 3L4OC 2H3XB 1MG2B 4FAVC 2AGWD 4FB1C 2OK6D 3RN0C 2IUPD 2AGZD 2BBKL 2I0TD 3SWSC 2H47B 2I0RD 2AGYD 2AH1D 4FANC 2AGXD 2OIZD 4FA9C 2OJYD 2HJBD 2J55L 2HXCD 1MAEL 4K3IC 2GC4B
chains in the Genus database with same CATH superfamily
1MG3B 2IUVD 2J56L 3SXTC 4FA4C 3SJLC 2J57K 2GC7B 4L3GC 2I0SD 3SLEC 2AH0D 2HKMD 2OK4D 2HKRD 3C75L 3PXTC 3RMZC 1MAFL 3PXSC 2Q7QD 3L4MC 3ORVC 2MADL 2MTAL 2HJ4D 2IAAB 2AGLD 3PXWC 4L3HC 3RLMC 4Y5RC 3SVWC 1MDAL 4FA5C 4L1QC 4O1QC 2IURD 3RN1C 4FA1C 2IUQD 3L4OC 2H3XB 1MG2B 4FAVC 2AGWD 4FB1C 2OK6D 3RN0C 2IUPD 2AGZD 2BBKL 2I0TD 3SWSC 2H47B 2I0RD 2AGYD 2AH1D 4FANC 2AGXD 2OIZD 4FA9C 2OJYD 2HJBD 2J55L 2HXCD 1MAEL 4K3IC 2GC4B
chains in the Genus database with same CATH topology
1MG3B 2IUVD 2J56L 3SXTC 4FA4C 3SJLC 2J57K 2GC7B 4L3GC 2I0SD 3SLEC 2AH0D 2HKMD 2OK4D 2HKRD 3C75L 3PXTC 3RMZC 1MAFL 3PXSC 2Q7QD 3L4MC 3ORVC 2MADL 2MTAL 2HJ4D 2IAAB 2AGLD 3PXWC 4L3HC 3RLMC 4Y5RC 3SVWC 1MDAL 4FA5C 4L1QC 4O1QC 2IURD 3RN1C 4FA1C 2IUQD 3L4OC 2H3XB 1MG2B 4FAVC 2AGWD 4FB1C 2OK6D 3RN0C 2IUPD 2AGZD 2BBKL 2I0TD 3SWSC 2H47B 2I0RD 2AGYD 2AH1D 4FANC 2AGXD 2OIZD 4FA9C 2OJYD 2HJBD 2J55L 2HXCD 1MAEL 4K3IC 2GC4B
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1MG3 B;  2IUV D;  2J56 L;  3SXT C;  4FA4 C;  3SJL C;  2J57 K;  2GC7 B;  4L3G C;  2I0S D;  3SLE C;  2AH0 D;  2HKM D;  2OK4 D;  2HKR D;  3C75 L;  3PXT C;  3RMZ C;  1MAF L;  3PXS C;  2Q7Q D;  3L4M C;  3ORV C;  2MAD L;  2MTA L;  2HJ4 D;  2IAA B;  2AGL D;  3PXW C;  4L3H C;  3RLM C;  4Y5R C;  3SVW C;  1MDA L;  4FA5 C;  4L1Q C;  4O1Q C;  2IUR D;  3RN1 C;  4FA1 C;  2IUQ D;  3L4O C;  2H3X B;  1MG2 B;  4FAV C;  2AGW D;  4FB1 C;  2OK6 D;  3RN0 C;  2IUP D;  2AGZ D;  2BBK L;  2I0T D;  3SWS C;  2H47 B;  2I0R D;  2AGY D;  2AH1 D;  4FAN C;  2AGX D;  2OIZ D;  4FA9 C;  2OJY D;  2HJB D;  2J55 L;  2HXC D;  1MAE L;  4K3I C;  2GC4 B; 
#chains in the Genus database with same CATH topology
 1MG3 B;  2IUV D;  2J56 L;  3SXT C;  4FA4 C;  3SJL C;  2J57 K;  2GC7 B;  4L3G C;  2I0S D;  3SLE C;  2AH0 D;  2HKM D;  2OK4 D;  2HKR D;  3C75 L;  3PXT C;  3RMZ C;  1MAF L;  3PXS C;  2Q7Q D;  3L4M C;  3ORV C;  2MAD L;  2MTA L;  2HJ4 D;  2IAA B;  2AGL D;  3PXW C;  4L3H C;  3RLM C;  4Y5R C;  3SVW C;  1MDA L;  4FA5 C;  4L1Q C;  4O1Q C;  2IUR D;  3RN1 C;  4FA1 C;  2IUQ D;  3L4O C;  2H3X B;  1MG2 B;  4FAV C;  2AGW D;  4FB1 C;  2OK6 D;  3RN0 C;  2IUP D;  2AGZ D;  2BBK L;  2I0T D;  3SWS C;  2H47 B;  2I0R D;  2AGY D;  2AH1 D;  4FAN C;  2AGX D;  2OIZ D;  4FA9 C;  2OJY D;  2HJB D;  2J55 L;  2HXC D;  1MAE L;  4K3I C;  2GC4 B; 
#chains in the Genus database with same CATH homology
 1MG3 B;  2IUV D;  2J56 L;  3SXT C;  4FA4 C;  3SJL C;  2J57 K;  2GC7 B;  4L3G C;  2I0S D;  3SLE C;  2AH0 D;  2HKM D;  2OK4 D;  2HKR D;  3C75 L;  3PXT C;  3RMZ C;  1MAF L;  3PXS C;  2Q7Q D;  3L4M C;  3ORV C;  2MAD L;  2MTA L;  2HJ4 D;  2IAA B;  2AGL D;  3PXW C;  4L3H C;  3RLM C;  4Y5R C;  3SVW C;  1MDA L;  4FA5 C;  4L1Q C;  4O1Q C;  2IUR D;  3RN1 C;  4FA1 C;  2IUQ D;  3L4O C;  2H3X B;  1MG2 B;  4FAV C;  2AGW D;  4FB1 C;  2OK6 D;  3RN0 C;  2IUP D;  2AGZ D;  2BBK L;  2I0T D;  3SWS C;  2H47 B;  2I0R D;  2AGY D;  2AH1 D;  4FAN C;  2AGX D;  2OIZ D;  4FA9 C;  2OJY D;  2HJB D;  2J55 L;  2HXC D;  1MAE L;  4K3I C;  2GC4 B; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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